MakerBot Print is our newest print-prepration software, which supports native CAD files and STL assemblies,
allows you to interact with all your printers via the Cloud, and many other exciting new features.
Just tried again and watched while printing. I also can see the problem at the slicer preview: within the plate is left a "pit". As soon as the height from the plate is reached, it starts to print the squashballholder above this pit, i.e. there´s a hole where the two "parts" should be connected. I use Simplify 3D V4.
next layer: https://picload.org/view/ddgglwii/squashholder2.jpg.html